Ahh... TOOLPATHS!
You did not say, "cuts on the mill."
You know that when you generate toolpaths, ALL the paths the tool will take, including lifts up to the safe clearance height, recursions necessary to begin a new cut, and all sorts of apparently "unnecessary" tool motions will be shown -- not JUST the actual cuts, themselves.
You may just be looking at EVERY motion the tool will make, and confusing many of those for actual cuts.
Have you run this through CutViewer, or some other simulator, to see what the work will look like when finished?
(HINT... change the machining colors to something drastically bright for actuall cuts, and dim, dull colors for everything else, then look at the toolpaths, and see what you see.)
LLoyd